The short answer is yes, of course it can be modified, but it will be no simple task.
I recently acquired a CD3 & fairly well impressed with it I am - it doesn't seem to have too much of the 'bad' side of the Naim sound about it, to my ears at least. Still, I bought it knowing how it could be improved & fully intend to modify it.
I think my first approach would be to have separate digital/analog supplies & then improve the regulation on the analog side.
I actually first opened the thing up over the weekend & was quite surprised to find about 11 regulators in there!Obviously care has been taken to separate all the supplies, but as we know well, these can be easily improved upon.